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- The FastTree method. Check FastTree Web Site for more details.
- The IQ-TREE method. Check IQ-TREE Web Site for more details.
- The PHYLIP Neighbour-Joining method. The PHYLIP package implementation of the method is used under the hood.
- The MrBayes external tool. Check MrBayes Web Site for more details.
- PhyML Maximum Likelihood method. Check PhyML Maximum Likelihood Web Site for more details.
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